Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011324.1 Kokia drynarioides strain JFW-HI SEQ_126304, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 82170
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Found at i:8394 original size:59 final size:59
Alignment explanation
Indices: 8323--8640 Score: 365
Period size: 59 Copynumber: 5.4 Consensus size: 59
8313 AATTCGAGTT
* * * * *
8323 TAAAAAGGGAATTTTTAGAAGTTTTTGGGTCAAAAATGAGATTTTTTGAATTTTAGGGG
1 TAAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGAGATTTTTGGAAGTTTAGGGG
* *
8382 TAAAAATAGAATTTTTGGAA-TTTTGGGGTCAAAAATGGGATTTTTGGAAGTTTAGGGG
1 TAAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGAGATTTTTGGAAGTTTAGGGG
* * * * * *
8440 TAAAAATGGAATTTTTGGAAGTTTCGGGGTTAAAAATGGGTTTTTTGTAATTTTA-GGG
1 TAAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGAGATTTTTGGAAGTTTAGGGG
** * * *
8498 TAAAAATGGAATTTTTAAAAGTTTCGAGGTCAAAAAT-AGTATTTTTGGAAGTTT-GAGTG
1 TAAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGAG-ATTTTTGGAAGTTTAG-GGG
* * * **
8557 TAAAAATGGAATTTTTGGAAGTTTTGGGGTTACAAATGGGATTTTTGGAAGTTCGGGGG
1 TAAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGAGATTTTTGGAAGTTTAGGGG
*
8616 TGAAAATGGAATTTTTGGATAGTTT
1 TAAAAATGGAATTTTTGGA-AGTTT
8641 AGGGACCTCC
Statistics
Matches: 220, Mismatches: 32, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
57 1 0.00
58 100 0.45
59 112 0.51
60 7 0.03
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.38
Consensus pattern (59 bp):
TAAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGAGATTTTTGGAAGTTTAGGGG
Found at i:8475 original size:117 final size:117
Alignment explanation
Indices: 8323--8640 Score: 390
Period size: 117 Copynumber: 2.7 Consensus size: 117
8313 AATTCGAGTT
* * * *
8323 TAAAAAGGGAATTTTTAGAAGTTTTTGGGTCAAAAATGAGATTTTTTGAATTTTAGGGGTAAAAA
1 TAAAAATGGAATTTTTGGAAGTTTTGGGGTTAAAAATG-GATTTTTTGAATTTTAGGGGTAAAAA
* * * *
8388 TAGAATTTTTGGAA-TTTTGGGGTCAAAAATGGGATTTTTGGAAGTTT-AGGGG
65 TGGAATTTTTGGAAGTTTCGAGGTCAAAAATAGGATTTTTGGAAGTTTGA-GGG
* *
8440 TAAAAATGGAATTTTTGGAAGTTTCGGGGTTAAAAATGGGTTTTTTGTAATTTTA-GGGTAAAAA
1 TAAAAATGGAATTTTTGGAAGTTTTGGGGTTAAAAATGGATTTTTTG-AATTTTAGGGGTAAAAA
** * *
8504 TGGAATTTTTAAAAGTTTCGAGGTCAAAAATAGTATTTTTGGAAGTTTGAGTG
65 TGGAATTTTTGGAAGTTTCGAGGTCAAAAATAGGATTTTTGGAAGTTTGAGGG
* * * ** *
8557 TAAAAATGGAATTTTTGGAAGTTTTGGGGTTACAAATGGGATTTTTGGAAGTTCGGGGGTGAAAA
1 TAAAAATGGAATTTTTGGAAGTTTTGGGGTTAAAAAT-GGATTTTTTGAATTTTAGGGGTAAAAA
8622 TGGAATTTTTGGATAGTTT
65 TGGAATTTTTGGA-AGTTT
8641 AGGGACCTCC
Statistics
Matches: 171, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
116 28 0.16
117 110 0.64
118 28 0.16
119 5 0.03
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.38
Consensus pattern (117 bp):
TAAAAATGGAATTTTTGGAAGTTTTGGGGTTAAAAATGGATTTTTTGAATTTTAGGGGTAAAAAT
GGAATTTTTGGAAGTTTCGAGGTCAAAAATAGGATTTTTGGAAGTTTGAGGG
Found at i:8616 original size:30 final size:30
Alignment explanation
Indices: 8322--8640 Score: 289
Period size: 29 Copynumber: 10.8 Consensus size: 30
8312 AAATTCGAGT
* * *
8322 TTAAAAAGGGAATTTTTAGAAGTTTTTGGG
1 TTAAAAATGGAATTTTTGGAAGTTTTGGGG
* *
8352 TCAAAAAT-GAGATTTTTTGAA-TTTTAGGGG
1 TTAAAAATGGA-ATTTTTGGAAGTTTT-GGGG
*
8382 -TAAAAATAGAATTTTTGGAA-TTTTGGGG
1 TTAAAAATGGAATTTTTGGAAGTTTTGGGG
* * *
8410 TCAAAAATGGGATTTTTGGAAGTTTAGGGG
1 TTAAAAATGGAATTTTTGGAAGTTTTGGGG
*
8440 -TAAAAATGGAATTTTTGGAAGTTTCGGGG
1 TTAAAAATGGAATTTTTGGAAGTTTTGGGG
** * *
8469 TTAAAAATGGGTTTTTTGTAA-TTTTAGGG
1 TTAAAAATGGAATTTTTGGAAGTTTTGGGG
** * *
8498 -TAAAAATGGAATTTTTAAAAGTTTCGAGG
1 TTAAAAATGGAATTTTTGGAAGTTTTGGGG
* * * *
8527 TCAAAAATAGTATTTTTGGAAG-TTT-GAG
1 TTAAAAATGGAATTTTTGGAAGTTTTGGGG
8555 TGTAAAAATGGAATTTTTGGAAGTTTTGGGG
1 T-TAAAAATGGAATTTTTGGAAGTTTTGGGG
* * *
8586 TTACAAATGGGATTTTTGGAAG-TTCGGGG
1 TTAAAAATGGAATTTTTGGAAGTTTTGGGG
* *
8615 GTGAAAATGGAATTTTTGGATAGTTT
1 TTAAAAATGGAATTTTTGGA-AGTTT
8641 AGGGACCTCC
Statistics
Matches: 232, Mismatches: 44, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
28 22 0.09
29 121 0.52
30 84 0.36
31 5 0.02
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.39
Consensus pattern (30 bp):
TTAAAAATGGAATTTTTGGAAGTTTTGGGG
Found at i:9596 original size:9 final size:9
Alignment explanation
Indices: 9577--9641 Score: 69
Period size: 9 Copynumber: 7.1 Consensus size: 9
9567 TTTTTTTATT
9577 TATTAATTAA
1 TATT-ATTAA
9587 TATTATTAA
1 TATTATTAA
9596 TATTATTAA
1 TATTATTAA
**
9605 T-TTAAAAA
1 TATTATTAA
*
9613 TAGTTATTAT
1 TA-TTATTAA
*
9623 TATTATTAT
1 TATTATTAA
9632 TATTATTAA
1 TATTATTAA
9641 T
1 T
9642 TATGGTTATT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
8 6 0.13
9 31 0.66
10 10 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATTATTAA
Found at i:9673 original size:3 final size:3
Alignment explanation
Indices: 9576--9655 Score: 54
Period size: 3 Copynumber: 26.0 Consensus size: 3
9566 CTTTTTTTAT
* * * ** *
9576 TTA TTAA TTA ATA TTA TTA ATA TTA TTA AT- TTA AAA ATA GTTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
**
9622 TTA TTA TTA TTA TTA TTAA TTA TGG TTA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
9656 ATAACAATAT
Statistics
Matches: 59, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
2 1 0.02
3 50 0.85
4 8 0.14
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:10405 original size:6 final size:6
Alignment explanation
Indices: 10390--10498 Score: 68
Period size: 6 Copynumber: 18.7 Consensus size: 6
10380 TGTAATTGAT
* * * *
10390 TTTAAA TTTAAG TTTAAA ATT--A TTTCAAA TTTAGA -CTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
** *
10436 TTTAACA --TAAA TTTAAA TTTAAAA AATGAA TTTAAA TTTAAA TTTAAA
1 TTTAA-A TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
10484 -GTAAA TTTAAT TTTA
1 TTTAAA TTTAAA TTTA
10499 GAAATAAATC
Statistics
Matches: 77, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
4 4 0.05
5 10 0.13
6 54 0.70
7 9 0.12
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:10469 original size:19 final size:19
Alignment explanation
Indices: 10426--10477 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
10416 AAATTTAGAC
*
10426 TAAATTTAAATTT--AACA
1 TAAATTTAAATTTAAAAAA
10443 TAAATTTAAATTTAAAAAA
1 TAAATTTAAATTTAAAAAA
*
10462 TGAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
10478 TTTAAAGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 13 0.42
19 18 0.58
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TAAATTTAAATTTAAAAAA
Found at i:10493 original size:17 final size:17
Alignment explanation
Indices: 10392--10477 Score: 84
Period size: 17 Copynumber: 4.9 Consensus size: 17
10382 TAATTGATTT
*
10392 TAAATTTAAGTTTAAAA
1 TAAATTTAAATTTAAAA
* * *
10409 T-TATTTCAAATTTAGAC
1 TAAATTT-AAATTTAAAA
*
10426 TAAATTTAAATTTAACA
1 TAAATTTAAATTTAAAA
10443 TAAATTTAAATTTAAAAAA
1 TAAATTTAAATTT--AAAA
*
10462 TGAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
10478 TTTAAAGTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
16 4 0.07
17 32 0.58
18 4 0.07
19 15 0.27
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:11014 original size:24 final size:24
Alignment explanation
Indices: 10939--11017 Score: 149
Period size: 24 Copynumber: 3.3 Consensus size: 24
10929 TTAAACTCTG
10939 TCTGGGCTCGTAAGAGCTAATCAT
1 TCTGGGCTCGTAAGAGCTAATCAT
*
10963 TCTAGGCTCGTAAGAGCTAATCAT
1 TCTGGGCTCGTAAGAGCTAATCAT
10987 TCTGGGCTCGTAAGAGCTAATCAT
1 TCTGGGCTCGTAAGAGCTAATCAT
11011 TCTGGGC
1 TCTGGGC
11018 GTGTTGGTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (24 bp):
TCTGGGCTCGTAAGAGCTAATCAT
Found at i:11732 original size:21 final size:21
Alignment explanation
Indices: 11706--11758 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
11696 GGAGTTTTTA
* *
11706 GTATCGGTAGATGCATGACTT
1 GTATCGGTAGATACATAACTT
**
11727 GTATCGGTAGATATTTAACTT
1 GTATCGGTAGATACATAACTT
11748 GTATCGGTAGA
1 GTATCGGTAGA
11759 ACTAGTACAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.36
Consensus pattern (21 bp):
GTATCGGTAGATACATAACTT
Found at i:23851 original size:15 final size:15
Alignment explanation
Indices: 23831--23860 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23821 GCTAAGTGAT
23831 AACATGGTGATTGAA
1 AACATGGTGATTGAA
*
23846 AACATGGTTATTGAA
1 AACATGGTGATTGAA
23861 GCATAAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (15 bp):
AACATGGTGATTGAA
Found at i:24768 original size:16 final size:17
Alignment explanation
Indices: 24735--24768 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24725 GAGGATAATG
*
24735 ACACTTTGTCTATGGAA
1 ACACTTTCTCTATGGAA
24752 ACACTTTCTCT-TGGAA
1 ACACTTTCTCTATGGAA
24768 A
1 A
24769 GAAAGCGCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (17 bp):
ACACTTTCTCTATGGAA
Found at i:25913 original size:24 final size:24
Alignment explanation
Indices: 25880--25942 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
25870 AGAAATAATC
*
25880 TTTCAGTTAAATTTTATTTATTTA
1 TTTCAATTAAATTTTATTTATTTA
* * *
25904 TTTCAATTAAATTCTGTTTATTTG
1 TTTCAATTAAATTTTATTTATTTA
* *
25928 TTTGAATCAAATTTT
1 TTTCAATTAAATTTT
25943 TATTAGTTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (24 bp):
TTTCAATTAAATTTTATTTATTTA
Found at i:41255 original size:19 final size:20
Alignment explanation
Indices: 41233--41278 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
41223 TGCTTGTGTA
* *
41233 ATTGTGAA-AAAGATGTGAT
1 ATTGTGAATAAACATGAGAT
41252 ATTGTGAATAAACATGAGAT
1 ATTGTGAATAAACATGAGAT
*
41272 GTTGTGA
1 ATTGTGA
41279 CATATGCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.39, C:0.02, G:0.26, T:0.33
Consensus pattern (20 bp):
ATTGTGAATAAACATGAGAT
Found at i:45042 original size:17 final size:16
Alignment explanation
Indices: 45008--45060 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 16
44998 AACGGATGAT
*
45008 AAAAAAAAATT-GATA
1 AAAAAAAAATTAAATA
*
45023 AAAAAAATATTAAATA
1 AAAAAAAAATTAAATA
* *
45039 AAAATAGAAATTAAATG
1 AAAA-AAAAATTAAATA
45056 AAAAA
1 AAAAA
45061 CATGAGAGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 10 0.32
16 8 0.26
17 13 0.42
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAAAAAAATTAAATA
Found at i:47454 original size:22 final size:22
Alignment explanation
Indices: 47429--47472 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
47419 TTTGAAATAA
*
47429 ATTATATTTTTACAATAATACT
1 ATTATATTCTTACAATAATACT
47451 ATTATATTCTTACAATAATACT
1 ATTATATTCTTACAATAATACT
47473 TTTAACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTATATTCTTACAATAATACT
Found at i:49819 original size:134 final size:137
Alignment explanation
Indices: 49576--49847 Score: 442
Period size: 134 Copynumber: 2.0 Consensus size: 137
49566 TTTTTCATGC
*
49576 ACATATCATTCTTATAAAGTTCTGATACCTTTCAGGAACAAATATATAAGATAGCTTTTCTTTTT
1 ACATATCATTCTTATAAAGTTCTGATACCTTTCAGGAACAAATATACAAGATAGCTTTTCTTTTT
* * *
49641 CTGGAATTAACTTTACCAAAGTACTAGTGTAGCAGCATTGATTTGCAATAAGCCGGTGGAAAACC
66 CTGGAATTAACTTTACCAAAGCACTAGTGTAGCAGCATTGATTTGCAATAAGCAGGAGGAAAACC
49706 CAAAAGA
131 CAAAAGA
* * *
49713 ACATATCATTCTTATCAAGTTCTGATACTTTTCAGGAACAAATATACGAGA-A-CTTTTC-TTTT
1 ACATATCATTCTTATAAAGTTCTGATACCTTTCAGGAACAAATATACAAGATAGCTTTTCTTTTT
* *
49775 CTGGAATTAACTTTCCCAAAGCACTAGTTTAGCAGCATTGATTTGCAATAAGCAGGAGGAAAACC
66 CTGGAATTAACTTTACCAAAGCACTAGTGTAGCAGCATTGATTTGCAATAAGCAGGAGGAAAACC
49840 CAAAAGA
131 CAAAAGA
49847 A
1 A
49848 AATACATCTT
Statistics
Matches: 126, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
134 72 0.57
135 6 0.05
136 1 0.01
137 47 0.37
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (137 bp):
ACATATCATTCTTATAAAGTTCTGATACCTTTCAGGAACAAATATACAAGATAGCTTTTCTTTTT
CTGGAATTAACTTTACCAAAGCACTAGTGTAGCAGCATTGATTTGCAATAAGCAGGAGGAAAACC
CAAAAGA
Found at i:59565 original size:18 final size:17
Alignment explanation
Indices: 59542--59587 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
59532 TTCATTTCTA
59542 GTTTTGGTTTTGTTAATG
1 GTTTTGGTTTT-TTAATG
*
59560 GTTTTGGTTATTTTGATG
1 GTTTTGGTT-TTTTAATG
59578 GTTTT-GTTTT
1 GTTTTGGTTTT
59588 ATGACTCTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 2 0.08
17 3 0.12
18 19 0.73
19 2 0.08
ACGTcount: A:0.09, C:0.00, G:0.26, T:0.65
Consensus pattern (17 bp):
GTTTTGGTTTTTTAATG
Found at i:66515 original size:19 final size:19
Alignment explanation
Indices: 66493--66542 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
66483 TTTAGATTTT
*
66493 TTTGAAATTTTT-ATAAATA
1 TTTG-AATTTTTGAAAAATA
66512 TTTGAATTTTTGAAAAATA
1 TTTGAATTTTTGAAAAATA
66531 TATTGAATTTTT
1 T-TTGAATTTTT
66543 TTTGTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 7 0.25
19 11 0.39
20 10 0.36
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTGAATTTTTGAAAAATA
Found at i:68290 original size:15 final size:15
Alignment explanation
Indices: 68272--68311 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
68262 TGTCATGAAC
68272 GAGTCTAT-TATAAAT
1 GAGTCTATGTAT-AAT
*
68287 GAGTCTATGTATGAT
1 GAGTCTATGTATAAT
68302 GAGTCTATGT
1 GAGTCTATGT
68312 TTGTCTTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.87
16 3 0.13
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (15 bp):
GAGTCTATGTATAAT
Found at i:68914 original size:29 final size:27
Alignment explanation
Indices: 68877--68957 Score: 119
Period size: 27 Copynumber: 3.0 Consensus size: 27
68867 TGTTGTGAAC
68877 CTTTG-AAAGGAAATGCCTTTGTGGCAAT
1 CTTTGTAAAGG-AA-GCCTTTGTGGCAAT
* *
68905 TTTTGTAAAGGAAGCCTTTGTGACAAT
1 CTTTGTAAAGGAAGCCTTTGTGGCAAT
68932 CTTTGTAAAGGAAGCCTTTGTGGCAA
1 CTTTGTAAAGGAAGCCTTTGTGGCAA
68958 ATTAGGAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
27 37 0.77
28 6 0.12
29 5 0.10
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (27 bp):
CTTTGTAAAGGAAGCCTTTGTGGCAAT
Found at i:68980 original size:54 final size:55
Alignment explanation
Indices: 68877--68980 Score: 124
Period size: 54 Copynumber: 1.9 Consensus size: 55
68867 TGTTGTGAAC
* ** * *
68877 CTTTGAAAGGAAATGCCTTTGTGGCAATTTTTGTAAAGGAAGCCTTTGTGACAAT
1 CTTTGAAAGGAAATGCCTTTGTGGCAAATTAGGAAAAGGAAGCCATTGTGACAAT
68932 CTTTGTAAAGG-AA-GCCTTTGTGGCAAATTAGGAAAAGTG-AGCCATTGTG
1 CTTTG-AAAGGAAATGCCTTTGTGGCAAATTAGGAAAAG-GAAGCCATTGTG
68981 GCGAGTATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
54 29 0.69
55 8 0.19
56 5 0.12
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (55 bp):
CTTTGAAAGGAAATGCCTTTGTGGCAAATTAGGAAAAGGAAGCCATTGTGACAAT
Found at i:77297 original size:17 final size:17
Alignment explanation
Indices: 77277--77311 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
77267 TCCGTATATT
*
77277 ATACTAATTATATCTAA
1 ATACTAAGTATATCTAA
77294 ATACTAAGTATATCTAA
1 ATACTAAGTATATCTAA
77311 A
1 A
77312 CGAGTCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (17 bp):
ATACTAAGTATATCTAA
Done.